1 <?xml version="1.0"?>
\r
3 * Jalview - A Sequence Alignment Editor and Viewer (Version 2.6)
\r
4 * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
\r
6 * This file is part of Jalview.
\r
8 * Jalview is free software: you can redistribute it and/or
\r
9 * modify it under the terms of the GNU General Public License
\r
10 * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
\r
12 * Jalview is distributed in the hope that it will be useful, but
\r
13 * WITHOUT ANY WARRANTY; without even the implied warranty
\r
14 * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
\r
15 * PURPOSE. See the GNU General Public License for more details.
\r
17 * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
\r
19 <mapping xmlns="http://castor.exolab.org/" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
\r
20 xsi:schemaLocation="http://castor.exolab.org/ ../schemas/castor-mapping.xsd">
\r
22 History: Originally created from EMBL_common_V1.0
\r
23 Updated on 24th April 2007 for WsDBFetch Service move to EMBL_Services_V1.1.xsd
\r
25 <class name="jalview.datamodel.xdb.embl.EmblFile">
\r
26 <map-to xml="EMBL_Services"/>
\r
27 <field name="entries" type="jalview.datamodel.xdb.embl.EmblEntry" collection="vector">
\r
28 <bind-xml name="entry"/>
\r
31 <field name="errors" type="jalview.datamodel.xdb.embl.EmblError" collection="vector">
\r
32 <bind-xml name="Error"/>
\r
35 <class name="jalview.datamodel.xdb.embl.EmblEntry">
\r
36 <map-to xml="entry"/>
\r
37 <field name="accession" type="string">
\r
38 <bind-xml location="accession" node="attribute"/>
\r
40 <field name="lastUpdated" type="string">
\r
41 <bind-xml location="last-updated" node="attribute"/>
\r
43 <field name="version" type="string">
\r
44 <bind-xml location="version" node="attribute"/>
\r
47 <field name="rCreated" type="string">
\r
48 <bind-xml location="releaseCreated" node="attribute"/>
\r
50 <field name="rLastUpdated" type="string">
\r
51 <bind-xml location="releaseLastUpdated" node="attribute"/>
\r
53 <field name="desc" type="string">
\r
54 <bind-xml name="description" node="element"/>
\r
56 <field name="Keywords" type="string" collection="vector">
\r
57 <bind-xml name="keyword" node="element"/>
\r
59 <field name="features" type="jalview.datamodel.xdb.embl.EmblFeature" collection="vector">
\r
60 <bind-xml name="feature"/>
\r
62 <field name="dbRefs" type="jalview.datamodel.DBRefEntry" collection="vector">
\r
63 <bind-xml name="dbreference" />
\r
65 <field name="sequence" type="jalview.datamodel.xdb.embl.EmblSequence">
\r
66 <bind-xml name="sequence"/> <!-- location="sequence" node="element"/ -->
\r
69 <class name="jalview.datamodel.xdb.embl.EmblSequence">
\r
70 <map-to xml="sequence"/>
\r
71 <field name="type" type="string">
\r
72 <bind-xml name="type" node="attribute" location="type"/>
\r
74 <field name="version" type="string">
\r
75 <bind-xml name="version" node="attribute" location="version"/>
\r
77 <field name="sequence" type="string">
\r
78 <bind-xml node="text"/>
\r
81 <class name="jalview.datamodel.xdb.embl.EmblFeature" verify-constructable="false">
\r
82 <map-to xml="feature"/>
\r
83 <field name="name" type="string">
\r
84 <bind-xml name="name" node="attribute"/>
\r
86 <field name="dbRefs" type="jalview.datamodel.DBRefEntry" collection="vector">
\r
87 <bind-xml name="dbreference" node="element"/>
\r
89 <field name="qualifiers" type="jalview.datamodel.xdb.embl.Qualifier" collection="vector">
\r
90 <bind-xml name="qualifier"/>
\r
92 <field name="locations" type="jalview.datamodel.xdb.embl.EmblFeatureLocations" collection="vector">
\r
93 <bind-xml name="location"/>
\r
96 <class name="jalview.datamodel.DBRefEntry" verify-constructable="false">
\r
97 <field name="accessionId" type="java.lang.String"><!-- set-method="setAccessionId" get-method="getAccessionId"> -->
\r
98 <bind-xml name="primary" node="attribute"/>
\r
100 <field name="source" type="java.lang.String"> <!--set-method="setSource" get-method="getSource"> -->
\r
101 <bind-xml name="db" node="attribute"/>
\r
103 <field name="version" type="string"><!-- set-method="setVersion" get-method="getVersion"> -->
\r
104 <bind-xml name="secondary" node="attribute"/>
\r
107 <class name="jalview.datamodel.xdb.embl.Qualifier" verify-constructable="false">
\r
108 <map-to xml="Qualifier"/>
\r
109 <field name="name">
\r
110 <bind-xml name="name" node="attribute"/>
\r
112 <field name="evidence" type="string" collection="array">
\r
113 <bind-xml name="evidence" node="element"/>
\r
115 <field name="values" type="string" collection="array">
\r
116 <bind-xml name="value" node="element"/>
\r
119 <class name="jalview.datamodel.xdb.embl.EmblFeatureLocations">
\r
120 <map-to xml="location"/>
\r
121 <field name="locationType" type="string">
\r
122 <bind-xml name="type" node="attribute"/>
\r
124 <field name="locationComplement" type="boolean">
\r
125 <bind-xml name="complement" node="attribute"/>
\r
127 <field name="locElements" type="jalview.datamodel.xdb.embl.EmblFeatureLocElement" collection="vector">
\r
128 <bind-xml name="locationElement"/>
\r
131 <class name="jalview.datamodel.xdb.embl.EmblFeatureLocElement">
\r
132 <map-to xml="locationElement"/>
\r
133 <field name="type" type="string">
\r
134 <bind-xml name="type" node="attribute"/>
\r
136 <field name="accession" type="string">
\r
137 <bind-xml name="accession" node="attribute"/>
\r
139 <field name="version" type="string">
\r
140 <bind-xml name="version" node="attribute"/>
\r
142 <field name="complement" type="boolean">
\r
143 <bind-xml name="complement"/>
\r
145 <field name="basePositions" type="jalview.datamodel.xdb.embl.BasePosition" collection="array">
\r
146 <bind-xml name="basePosition" node="element"/>
\r
149 <class name="jalview.datamodel.xdb.embl.BasePosition">
\r
150 <map-to xml="basePosition"/>
\r
151 <field name="type">
\r
152 <bind-xml name="type" node="attribute"/>
\r
155 <bind-xml node="text"/>
\r